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java.lang.Objectuk.ac.sanger.psu.gfmerge.analysis.simfeature_analysis.BasicFeatureAnalysis
uk.ac.sanger.psu.gfmerge.analysis.simfeature_analysis.FeatureAnalysis
public abstract class FeatureAnalysis
Abstract class which contains partial implementation of derived analysis classes
Field Summary | |
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private SimpleArg |
allArguments
SimpleArg object which contains all command line arguments |
private java.util.ArrayList |
arrListOfFeatRegions
ArrayList of SimFeature regions (cDNA, Blast) |
private java.util.ArrayList |
arrListOfGMRegions
ArrayList of genemodels |
Constructor Summary | |
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FeatureAnalysis(java.util.ArrayList _arrListOfGMRegions,
java.util.ArrayList _arrListOfCDnaRegions,
SimpleArg _allArguments)
constructor of abstract FeatureAnalysis class, contains partial implementation of constructors of derived analysis classes |
Method Summary | |
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protected java.util.ArrayList |
getArrListOfFeatRegions()
accessor method which gets ArrayList of SimFeature regions (cDNA, Blast) |
private void |
setArrListOfFeatRegions(java.util.ArrayList _arrListOfFeatRegions)
accessor method which sets ArrayList of SimFeature regions (cDNA, Blast) |
Methods inherited from class uk.ac.sanger.psu.gfmerge.analysis.simfeature_analysis.BasicFeatureAnalysis |
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getAllArguments, getArrListOfGMRegions, getClassName, getHighScoringGmRegArr |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Field Detail |
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private java.util.ArrayList arrListOfGMRegions
private java.util.ArrayList arrListOfFeatRegions
private SimpleArg allArguments
Constructor Detail |
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public FeatureAnalysis(java.util.ArrayList _arrListOfGMRegions, java.util.ArrayList _arrListOfCDnaRegions, SimpleArg _allArguments)
_arrListOfGMRegions
- ArrayList of genemodels_arrListOfCDnaRegions
- ArrayList of cDNA regions_allArguments
- SimpleArg object which contains all commad line
argumentsMethod Detail |
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protected java.util.ArrayList getArrListOfFeatRegions()
private void setArrListOfFeatRegions(java.util.ArrayList _arrListOfFeatRegions)
_arrListOfFeatRegions
- ArrayList of SimFeature regions (cDNA,
Blast)
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